BtaINT0025555 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020566 | BCR
Description
breakpoint cluster region [Source:HGNC Symbol;Acc:HGNC:1014]
Coordinates
chr17:73696846-73697579:-
Coord C1 exon
chr17:73697440-73697579
Coord A exon
chr17:73696981-73697439
Coord C2 exon
chr17:73696846-73696980
Length
459 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
ACTTCCACGCTCTTCCCCAGACA
3' ss Score
6.84
Exon sequences
Seq C1 exon
GAGGGAGCGGTCCAAGGTACCCTACATCGTGCGCCAGTGTGTCGAGGAGATCGAGCGCCGGGGCATGGAGGAGGTGGGCATCTACCGCGTGTCCGGAGTGGCCACGGACATCCAGGCCCTGAAGGCGGCCTTTGACGTCA
Seq A exon
GTGAGTGTCTCAGCGGGTGGGCGCGGTGCATGCGCCGCTGGGGAGGGCGGTTCCGCAGAAGCCTGTTCCTAACCCGTCCTGACCACGCGCGTGGCTCCTGCCAAGTCGGACCAGGGGCTTCCATGGGGCGGCCCCCTGCTCTACCCCCGGAGGCTCAGCTTGACCCCCGCCCCGGGGGTGGGTGTGACCCAAGCCCAGGGGTCAGCTAGTCTGGTGCCAAGAAGCTGGTGGAACGGCCCCGATTGCCAGATGTGGGGGGGGGACCCCAGGGTCGTCCTCGGTGGATTGCTCCTCCCTCCGCGGGGGCCTGCTGCCCTGGAGGTGTGGCGCGGGGTGGGAGTCACCGCCACCGTAGTTACAGCTGCCGTCAGGTGACCCGCACGGGCGGCTGGGGCTCAGAGGGTGGAGCCGACTCGGGGTCCGCGGCGGGCTCCGCTCCACTTCCACGCTCTTCCCCAG
Seq C2 exon
ACAACAAGGACGTGTCGGTGATGATGAGCGAGATGGACGTGAACGCCATCGCCGGGACGCTCAAGCTCTACTTCCGCGAGCTGCCCGAGCCCCTCTTCACCGACGAGTTCTACCCCAACTTCGCCGAGGGCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020566:ENSBTAT00000029392:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=PU(26.1=83.3)
A:
NA
C2:
PF0062022=RhoGAP=FE(29.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGGAGCGGTCCAAGGTAC
R:
CCCTCGGCGAAGTTGGGG
Band lengths:
270-729
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development